Initially forked from here. Thank you to the awesome binder team!
Part of the Bioinformatics Virtual Coordination Network :)
Enter the main FeGenie directory
cd FeGenie
print the FeGenie help menu
FeGenie -h
run FeGenie on test dataset
FeGenie.py -bin_dir genomes/ -bin_ext fna -out fegenie_out
Go into the output directory and check out the output files
cd fegenie_out
less FeGenie-geneSummary-clusters.csv
run FeGenie on gene calls
FeGenie.py -bin_dir ORFs/ -bin_ext faa -out fegenie_out --orfs
run FeGenie on gene calls, and use reference database (RefSeq sub-sample) for cross-validation
FeGenie.py -bin_dir ORFs/ -bin_ext faa -out fegenie_out --orfs -ref refseq_db/refseq_nr.sample.faa